Variant report

Variant	rs6563726
Chromosome Location	chr13:40131922-40131923
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1022808	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs1160321	0.95[AMR][1000 genomes]
rs1570414	0.94[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs1885758	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1885760	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1885762	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2324333	0.94[ASN][1000 genomes]
rs2324335	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2324347	0.91[AMR][1000 genomes]
rs2875329	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs3858867	0.88[AMR][1000 genomes]
rs4304917	0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4325425	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4456374	0.91[AMR][1000 genomes]
rs4471557	0.94[ASN][1000 genomes]
rs4520717	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs4559795	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4941933	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4941935	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4943674	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61956469	0.95[AMR][1000 genomes]
rs6563719	0.82[CEU][hapmap]
rs6563720	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6563721	0.84[EUR][1000 genomes]
rs6563727	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6563728	0.88[AMR][1000 genomes]
rs7324883	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7331023	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7333587	0.93[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7335390	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7338428	0.93[AMR][1000 genomes]
rs7981205	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7985507	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7986918	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7988729	1.00[CEU][hapmap];0.89[CHB][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8000471	0.94[ASN][1000 genomes]
rs912050	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs927515	0.86[AMR][1000 genomes]
rs9285135	0.84[EUR][1000 genomes]
rs9285136	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9315698	0.84[EUR][1000 genomes]
rs9315704	1.00[CEU][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9315705	1.00[CEU][hapmap];0.82[AMR][1000 genomes]
rs9548796	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9548807	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9566448	0.87[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9566457	0.93[CEU][hapmap];0.83[AMR][1000 genomes]
rs9576865	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs978135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40107800-40140200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr13:40111200-40133200	Weak transcription	Aorta	Aorta
3	chr13:40114400-40136000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr13:40115400-40133200	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr13:40115600-40133600	Weak transcription	Osteobl	bone
6	chr13:40121400-40136200	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr13:40125400-40133400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr13:40125600-40133000	Weak transcription	Lung	lung
9	chr13:40126400-40137200	Weak transcription	NHLF	lung
10	chr13:40127000-40133400	Weak transcription	Brain Angular Gyrus	brain
11	chr13:40127000-40136200	Weak transcription	NHDF-Ad	bronchial
12	chr13:40128800-40137600	Weak transcription	Colon Smooth Muscle	Colon
13	chr13:40129000-40133000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr13:40129000-40133200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr13:40129000-40145600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr13:40129000-40152800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr13:40129200-40133200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr13:40129200-40133200	Weak transcription	Brain Substantia Nigra	brain
19	chr13:40129200-40135800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr13:40129200-40135800	Weak transcription	HMEC	breast
21	chr13:40129400-40136800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr13:40129800-40133200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr13:40130000-40139600	Weak transcription	Fetal Stomach	stomach
24	chr13:40130400-40133600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr13:40130600-40132200	Enhancers	Fetal Muscle Leg	muscle
26	chr13:40130800-40133200	Weak transcription	Fetal Heart	heart
27	chr13:40130800-40133200	Weak transcription	Right Atrium	heart
28	chr13:40131000-40132200	Enhancers	Fetal Muscle Trunk	muscle
29	chr13:40131000-40138600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr13:40131000-40138600	Weak transcription	Adipose Nuclei	Adipose
31	chr13:40131200-40132200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr13:40131200-40137600	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr13:40131400-40132000	Enhancers	HSMM	muscle
34	chr13:40131400-40132200	Genic enhancers	Left Ventricle	heart
35	chr13:40131400-40132200	Genic enhancers	Right Ventricle	heart
36	chr13:40131400-40132600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr13:40131600-40132400	Strong transcription	Fetal Lung	lung
38	chr13:40131600-40132600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr13:40131600-40135000	Weak transcription	Ovary	ovary
40	chr13:40131600-40135400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr13:40131600-40137400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr13:40131800-40132400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr13:40131800-40132400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr13:40131800-40133200	Weak transcription	HSMMtube	muscle

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